However, in T:B, clearly Flynn and Jordan live in a two-story house. In the scene where Jordan calls Flynn to come reheat her hot-water bottle, we see him standing in the doorway of their bedroom and behind him is a set of stairs leading down.

I just tell myself maybe he and Sam moved some time after Jordan dies (and I've seen one person who seems to take the tack that it's actually Flynn's parents' house we're seeing in the film), but...